Stephens Lab. Haploview. Overview Haploview is designed to simplify and expedite the process of haplotype analysis by providing a common interface to several tasks relating to such analyses.
Haploview currently supports the following functionalities: LD & haplotype block analysis haplotype population frequency estimation single SNP and haplotype association tests permutation testing for association significance implementation of Paul de Bakker's Tagger tag SNP selection algorithm. Automatic download of phased genotype data from HapMap visualization and plotting of PLINK whole genome association results including advanced filtering options.
PLINK: Whole genome data analysis toolset.